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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTAATTGGAAACGTGAGCGTACAATGGAAGACATTTTGATTCAATTGAAGAGAGAAATGATGTCTCCCCAAAATAGGAAGCTAACTCAGCCTCCTGAAGgtgtgtctatctcatttttatagttgcgatttgtttatatatacattttatcaattgctatatggttgaatgtatttcataattgttagtagtttctata...

Basic information

species Glycine max
transcript GLYMA07G24950.4
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G24950.4 (Glycine max), 5'ss of exon 4
lower sequence: Vv01s0011g05630.t01 (Vitis vinifera), 5'ss of exon 4
GCTAATTGGAAACGTGAGCGTACAATGGAAGACATTTTGATTCAATTGAAGAGAGAAATGATGTCTCCCCAAAATAGGAAGCTAACTCAGCCTCCTGAAGgtgtgtctatctcatttttatagttgcgatttgtttatatatacattttatcaattgctatatggttgaatgtatttcataattgttagtagtttctata-
|||| |||| |  | |||| ||||||||| ||||| |||| ||||||||||| |||||||||||||||||| ||| | |||||  ||||||||||||||||| |||  || |  ||| |   | |         |  | | | | || ||||  || | | || ||| ||   |    | ||  |    | || | | || 
GCTACTTGGCAGAGGGAGCATACAATGGAGGACATATTGACTCAATTGAAGAAAGAAATGATGTCTCCCCAGAATCGAAAGCTGGCTCAGCCTCCTGAAGgtttgttaattttgtttctggtgattgacagaaatagtgttttctttctatctctt-caagattgttaaaaaaaaaataaaagggaagattgtctttgtag
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|254347326|gb|GR853575.1|GR853575
EST:     GAGAGAAATGATGTCTCCCCAAAATAGGAAGCTAACTCAGCCTCCTGAAG                         GCAATGAAGAATCCAGGGTTGATCAAAAGGGGTTGGTGGTGAGATGTTGTA
genomic: GAGAGAAATGATGTCTCCCCAAAATAGGAAGCTAACTCAGCCTCCTGAAGgtgtgtctat ... tttatgacagGCAATGAAGAATCCAGGGTTGATCAAAAGGGGTTGGTGGTGAGATGTTGTA
EST: gi|21887768|gb|BQ740981.1|BQ740981
EST:     GAGAGAAATGATGTCTCCCCAAAATAGGAAGCTAACTCAGCCTCCTGAAG                         GCAATGAAGAATCCAGGGTTGATCAAAAGGGGTTGGTGGTGAGATGTTGTA
genomic: GAGAGAAATGATGTCTCCCCAAAATAGGAAGCTAACTCAGCCTCCTGAAGgtgtgtctat ... tttatgacagGCAATGAAGAATCCAGGGTTGATCAAAAGGGGTTGGTGGTGAGATGTTGTA
EST: gi|15814266|gb|BI786541.1|BI786541
EST:     GAGAGAAATGATGTCTCCCCAAAATAGGAAGCTAACTCAGCCTCCTGAAG                         GCAATGAAGAATCCAGGGTTGATCAAAAGGGGTTGGNTGGTGAGATGNTGT
genomic: GAGAGAAATGATGTCTCCCCAAAATAGGAAGCTAACTCAGCCTCCTGAAGgtgtgtctat ... tttatgacagGCAATGAAGAATCCAGGGTTGATCAAAAGGGGTTGG-TGGTGAGATGTTGT
EST: gi|192319629|gb|FK013713.1|FK013713
EST:     GAGAGAAATGATGTCTCCCCAAAATAGGAAGCTAACTCAGCCTCCTGAAG                         GCAATGAAGAATCCAGGGTTGATCAAAAGGGGTTGGTGGTGAGATGTTGTA
genomic: GAGAGAAATGATGTCTCCCCAAAATAGGAAGCTAACTCAGCCTCCTGAAGgtgtgtctat ... tttatgacagGCAATGAAGAATCCAGGGTTGATCAAAAGGGGTTGGTGGTGAGATGTTGTA
EST: gi|254347325|gb|GR853574.1|GR853574
EST:     GAGAGAAATGATGTCTCCCCAAAATAGGAAGCTAACTCAGCCTCCTGAAG                         GCAATGAAGAATCCAGGGTTGATCAAAAGGGGTTGGTGGTGAGATGTTGTA
genomic: GAGAGAAATGATGTCTCCCCAAAATAGGAAGCTAACTCAGCCTCCTGAAGgtgtgtctat ... tttatgacagGCAATGAAGAATCCAGGGTTGATCAAAAGGGGTTGGTGGTGAGATGTTGTA
EST: gi|298172716|gb|HO019756.1|HO019756
EST:     GAGAGAAATGATGTCTCCCCAAAATAGGAAGCTAACTCAGCCTCCTGAAG                         GCAATGAAGAATCCAGGGTTGATCAAAAGGGGTTGGTGGTGAGATGTTGTA
genomic: GAGAGAAATGATGTCTCCCCAAAATAGGAAGCTAACTCAGCCTCCTGAAGgtgtgtctat ... tttatgacagGCAATGAAGAATCCAGGGTTGATCAAAAGGGGTTGGTGGTGAGATGTTGTA
EST: gi|15661899|gb|BI699270.1|BI699270
EST:     GAGAGAAATGATGTCTCCACAAAATAGGAAGCTAACTCAGCCTCCTGAAN                         GCAATGAAGAATCCAGGGTTGATCAAAAGGGG
genomic: GAGAGAAATGATGTCTCCCCAAAATAGGAAGCTAACTCAGCCTCCTGAAGgtgtgtctat ... tttatgacagGCAATGAAGAATCCAGGGTTGATCAAAAGGGG
EST: gi|298175103|gb|HO014906.1|HO014906
EST:     GAGAGAAATGATGTCTCCCCAAAATAGGAAGCTAACTCAGCCTCCTGAAG                         GCAATGAAGAATC
genomic: GAGAGAAATGATGTCTCCCCAAAATAGGAAGCTAACTCAGCCTCCTGAAGgtgtgtctat ... tttatgacagGCAATGAAGAATC
EST: gi|192301633|gb|FG994369.1|FG994369
EST:     GAGAGAAATGATGTCTCCCCAAAATAGGAAGCTAACTCAGCCTCCTGAAG                         GCAATGAAGAATCCAGGGTTGATCAAAAGGGGTTGGTGGTGAGATGTTGTA
genomic: GAGAGAAATGATGTCTCCCCAAAATAGGAAGCTAACTCAGCCTCCTGAAGgtgtgtctat ... tttatgacagGCAATGAAGAATCCAGGGTTGATCAAAAGGGGTTGGTGGTGAGATGTTGTA
EST: gi|7924626|gb|AW830652.1|AW830652
EST:     GAGAGAAATGATGTCTCCCCAAAATAGGAAGCTAACTCAGCCTCCTGAAG                         GCAATGAAGAATCCAGGGTTGATCAAAAGGGGTTGGTGGTGAGATGTTGTA
genomic: GAGAGAAATGATGTCTCCCCAAAATAGGAAGCTAACTCAGCCTCCTGAAGgtgtgtctat ... tttatgacagGCAATGAAGAATCCAGGGTTGATCAAAAGGGGTTGGTGGTGAGATGTTGTA
EST: gi|21993992|gb|BQ785520.1|BQ785520
EST:     GAGAGAAATGATGTCTCCCCAAAATAGGAAGCTAACTCAGCCTCCTGAAG                         GCAATGAAGAATCCAGGGTTGATCAAAAGGGGTTGGTGGTGAGATGTTGTA
genomic: GAGAGAAATGATGTCTCCCCAAAATAGGAAGCTAACTCAGCCTCCTGAAGgtgtgtctat ... tttatgacagGCAATGAAGAATCCAGGGTTGATCAAAAGGGGTTGGTGGTGAGATGTTGTA
EST: gi|192319630|gb|FK013714.1|FK013714
EST:     GAGAGAAATGATGTCTCCCCAAAATAGGAAGCTAACTCAGCCTCCTGAAG                         GCAATGAAGAATCCAGGGTTGATCAAAAGGGGTTGGTGGTGAGATGTTGTA
genomic: GAGAGAAATGATGTCTCCCCAAAATAGGAAGCTAACTCAGCCTCCTGAAGgtgtgtctat ... tttatgacagGCAATGAAGAATCCAGGGTTGATCAAAAGGGGTTGGTGGTGAGATGTTGTA
EST: gi|31311341|gb|CD396544.1|CD396544
EST:     GAGAGAAATGATGTCTCCCCAAAATAGGAAGCTAACTCAGCCTCCTGAAG                         GCAATGAAGAATCCAGGGTTGATCAAAAGGGGTTGGTGGTGAGATGTTGTA
genomic: GAGAGAAATGATGTCTCCCCAAAATAGGAAGCTAACTCAGCCTCCTGAAGgtgtgtctat ... tttatgacagGCAATGAAGAATCCAGGGTTGATCAAAAGGGGTTGGTGGTGAGATGTTGTA
EST: gi|151403964|gb|EV273774.1|EV273774
EST:     GAGAGAAATGATGTCTCCCCAAAATAGGAAGCTAACTCAGCCTCCTGAAG                         GCAATGAAGAATCCAGGGTTGATCAAAAGGGGTTGGTGGTGAGATGTTGTA
genomic: GAGAGAAATGATGTCTCCCCAAAATAGGAAGCTAACTCAGCCTCCTGAAGgtgtgtctat ... tttatgacagGCAATGAAGAATCCAGGGTTGATCAAAAGGGGTTGGTGGTGAGATGTTGTA
EST: gi|151409397|gb|EV279205.1|EV279205
EST:     GAGAGAAATGATGTCTCCCCAAAATAGGAAGCTAACTCAGCCTCCTGAAG                         GCAATGAAGAATCCAGGGTTGATCAAAAGGGGTTGGTGGTGAGATGTTGTA
genomic: GAGAGAAATGATGTCTCCCCAAAATAGGAAGCTAACTCAGCCTCCTGAAGgtgtgtctat ... tttatgacagGCAATGAAGAATCCAGGGTTGATCAAAAGGGGTTGGTGGTGAGATGTTGTA
EST: gi|298196851|gb|HO041594.1|HO041594
EST:     GAGAGAAATGATGTCTCCCCAAAATAGGAAGCTAACTCAGCCTCCTGAAG                         GCAATGAAGAATC
genomic: GAGAGAAATGATGTCTCCCCAAAATAGGAAGCTAACTCAGCCTCCTGAAGgtgtgtctat ... tttatgacagGCAATGAAGAATC

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCTAATTGGAAACGTGAGCGTACAATGGAAGACATTTTGATTCAATTGAAGAGAGAAATGATGTCTCCCCAAAATAGGAAGCTAACTCAGCCTCCTGAAGgtgtgtctatctcatttttatagttgcgatttgtttatatatacattttatcaattgctatatggttgaatgtatttcataattgttagtagtttctata

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG